Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 133 of 138
Found at i:18940952 original size:18 final size:18
Alignment explanation
Indices: 18940931--18940998 Score: 79
Period size: 17 Copynumber: 3.9 Consensus size: 18
18940921 AAGAACGAAA
18940931 AAAAATATAAAT-ATAAAT
1 AAAAATATAAATAAT-AAT
18940949 AAAAATATAAATAATAAT
1 AAAAATATAAATAATAAT
* *
18940967 AATAATAT-AATAATAAC
1 AAAAATATAAATAATAAT
*
18940984 AATAATAT-AATAATA
1 AAAAATATAAATAATA
18940999 GTGACATTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
17 23 0.49
18 22 0.47
19 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATATAAATAATAAT
Found at i:18940966 original size:3 final size:3
Alignment explanation
Indices: 18940958--18940998 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
18940948 TAAAAATATA
*
18940958 AAT AAT AAT AAT AAT -AT AAT AAT AAC AAT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18940999 GTGACATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18940987 original size:20 final size:20
Alignment explanation
Indices: 18940946--18941018 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
18940936 TATAAATATA
* *
18940946 AATAAAAATAT-A-AATAAT
1 AATAATAATATAATAATAAC
18940964 AATAATAATATAATAATAAC
1 AATAATAATATAATAATAAC
* *
18940984 AATAAT-ATAATAATAGTGAC
1 AATAATAAT-ATAATAATAAC
* *
18941004 ATTAATATTATAATA
1 AATAATAATATAATA
18941019 TATACAAAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
18 10 0.22
19 3 0.07
20 31 0.69
21 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
AATAATAATATAATAATAAC
Found at i:18941061 original size:3 final size:3
Alignment explanation
Indices: 18941053--18941078 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18941043 AAGAAAAGAA
18941053 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
18941079 AATCTGTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18941809 original size:110 final size:110
Alignment explanation
Indices: 18941610--18941933 Score: 247
Period size: 110 Copynumber: 2.9 Consensus size: 110
18941600 GTCAAGGTCA
* * * * *
18941610 TAAATAAATGACCAGACTAATGTTGCGAGTTTGAAAATGATCTAACCTGAGTCGAGATCACATGA
1 TAAATAAATGACCAAACTAATGTTGCGAGTCTGAAAATGATCTAACCTGAGTCAAAATCAAATGA
* * * *
18941675 TTGGGATGATGCCACGAGTCTGAAGTTGACCAAGACTAAGGATTT
66 CTGAGATGATACCACGAGTCTGAAGGTGACCAAGACTAAGGATTT
* * **
18941720 TAAATAAATGATCAAACTGATG-TGACGAGTCTGAAAATGATCTGTCCTGAGTCAAAATCAAATG
1 TAAATAAATGACCAAACTAATGTTG-CGAGTCTGAAAATGATCTAACCTGAGTCAAAATCAAATG
*** * * * **
18941784 ACTGAGATGATACTGTGAGTTTGAAGGTGACTAAGA-TCGAGTCGAGGTCA
65 ACTGAGATGATACCACGAGTCTGAAGGTGACCAAGACT-AAG--GA--TTT
* * * * * * * * *
18941834 TAAATAAATGACCAGACTAATGTCGCAAGTCTGAATATGATCTGACCTAAGTCGAGATCAGATGA
1 TAAATAAATGACCAAACTAATGTTGCGAGTCTGAAAATGATCTAACCTGAGTCAAAATCAAATGA
* * * ** * *
18941899 CTGGGATAATGCCATAAATCTGAAGGTGATCAAGA
66 CTGAGATGATACCACGAGTCTGAAGGTGACCAAGA
18941934 TCGAGTCGAT
Statistics
Matches: 165, Mismatches: 42, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
109 3 0.02
110 81 0.49
112 2 0.01
114 78 0.47
115 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (110 bp):
TAAATAAATGACCAAACTAATGTTGCGAGTCTGAAAATGATCTAACCTGAGTCAAAATCAAATGA
CTGAGATGATACCACGAGTCTGAAGGTGACCAAGACTAAGGATTT
Found at i:18941875 original size:114 final size:113
Alignment explanation
Indices: 18941437--18941956 Score: 442
Period size: 114 Copynumber: 4.6 Consensus size: 113
18941427 ACCTGAGCTA
* *** * * *
18941437 AGATCAAATGACTGGAATGATGCCGCAAGTCTAAAGGTGACCAAGATCGAGTCGAGGTTGA-AAA
1 AGATCAAATGACTGGGATGATGCCATGAGTCTGAAGGTGACCAAGATCGAGTCAAGG-TCATAAA
* * * * * * * * * *
18941501 TAAATTATCAAATTGATGTCGTGAGTCTGCAGATGATCTG-CCTAAGTAG
65 TAAATGACCAGACTAATGT-GCGAGTCTGAAAATGATCTGACCTGAGTCG
* * * *** *
18941550 AGATCAGATGAGTGGGACGATGTTGTGACTCTGAAGGTGACCAAGATCGAGTCAAGGTCATAAAT
1 AGATCAAATGACTGGGATGATGCCATGAGTCTGAAGGTGACCAAGATCGAGTCAAGGTCATAAAT
* *
18941615 AAATGACCAGACTAATGTTGCGAGTTTGAAAATGATCTAACCTGAGTCG
66 AAATGACCAGACTAATG-TGCGAGTCTGAAAATGATCTGACCTGAGTCG
* * * * **
18941664 AGATCACATGATTGGGATGATGCCACGAGTCTGAAGTTGACCAAGA-C---T-AAGGATTTTAAA
1 AGATCAAATGACTGGGATGATGCCATGAGTCTGAAGGTGACCAAGATCGAGTCAAGG-TCATAAA
* * * * *
18941724 TAAATGATCAAACTGATGTGACGAGTCTGAAAATGATCTGTCCTGAGTCA
65 TAAATGACCAGACTAATGTG-CGAGTCTGAAAATGATCTGACCTGAGTCG
* * * ** * * *
18941774 AAATCAAATGACTGAGATGATACTGTGAGTTTGAAGGTGACTAAGATCGAGTCGAGGTCATAAAT
1 AGATCAAATGACTGGGATGATGCCATGAGTCTGAAGGTGACCAAGATCGAGTCAAGGTCATAAAT
* * *
18941839 AAATGACCAGACTAATGTCGCAAGTCTGAATATGATCTGACCTAAGTCG
66 AAATGACCAGACTAATGT-GCGAGTCTGAAAATGATCTGACCTGAGTCG
* * * * * * *
18941888 AGATCAGATGACTGGGATAATGCCATAAATCTGAAGGTGATCAAGATCGAGTCGATGTCATAAAT
1 AGATCAAATGACTGGGATGATGCCATGAGTCTGAAGGTGACCAAGATCGAGTCAAGGTCATAAAT
18941953 AAAT
66 AAAT
18941957 AATCGGACTG
Statistics
Matches: 319, Mismatches: 77, Indels: 21
0.76 0.18 0.05
Matches are distributed among these distances:
109 6 0.02
110 81 0.25
111 1 0.00
112 2 0.01
113 78 0.24
114 147 0.46
115 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (113 bp):
AGATCAAATGACTGGGATGATGCCATGAGTCTGAAGGTGACCAAGATCGAGTCAAGGTCATAAAT
AAATGACCAGACTAATGTGCGAGTCTGAAAATGATCTGACCTGAGTCG
Found at i:18942808 original size:46 final size:46
Alignment explanation
Indices: 18942738--18942867 Score: 156
Period size: 46 Copynumber: 2.8 Consensus size: 46
18942728 CGATTCTTGT
* *
18942738 TACCTTTTAAGATTTTCAACTTGAACTTTTTTATTTT-GATCCAAGC
1 TACCCTTTAAGGTTTTCAACTTGAACTTTTTTATTTTAGAT-CAAGC
** * *
18942784 -AGCCCTTTCGGGTTTTCAACTTGAACTTTTTTGTTTTAGGTCAAGC
1 TA-CCCTTTAAGGTTTTCAACTTGAACTTTTTTATTTTAGATCAAGC
*
18942830 TACCCTTTAAGGTTTTCAACTTGAACTCTTTTTTTTTT
1 TACCCTTTAAGGTTTTCAACTTGAACT-TTTTTATTTT
18942868 TTTTGGTTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
45 1 0.01
46 58 0.82
47 12 0.17
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (46 bp):
TACCCTTTAAGGTTTTCAACTTGAACTTTTTTATTTTAGATCAAGC
Found at i:18953272 original size:24 final size:25
Alignment explanation
Indices: 18953227--18953287 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
18953217 TAAGAATTAT
*
18953227 TTTTATTTATTTGAAAATATTTTCA
1 TTTTATTTATTTGAAAAGATTTTCA
* *
18953252 TTTT-TTTATTTGAAAGGATTTTTTA
1 TTTTATTTATTTGAAAAGA-TTTTCA
*
18953277 TATTATTTATT
1 TTTTATTTATT
18953288 ATTTTTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 12 0.40
25 12 0.40
26 6 0.20
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.64
Consensus pattern (25 bp):
TTTTATTTATTTGAAAAGATTTTCA
Found at i:18953409 original size:26 final size:26
Alignment explanation
Indices: 18953380--18953437 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
18953370 AACCAAAAAG
*
18953380 AAATAATATAAAAAATAAAA-GAAATA
1 AAATAAT-TAAAAAATAAAATAAAATA
** *
18953406 AAATGGTTTAAAAATAAAATAAAATA
1 AAATAATTAAAAAATAAAATAAAATA
18953432 AAATAA
1 AAATAA
18953438 AAAAATGAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.22
Consensus pattern (26 bp):
AAATAATTAAAAAATAAAATAAAATA
Found at i:18954004 original size:20 final size:19
Alignment explanation
Indices: 18953953--18954008 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
18953943 TTCTAATCCA
*
18953953 AAAACCT-AACATCAAACCC
1 AAAACCTCAA-ATTAAACCC
*
18953972 ACAACCTCAAATTAAACCC
1 AAAACCTCAAATTAAACCC
*
18953991 AAAATCCTCGAATTAAAC
1 AAAA-CCTCAAATTAAAC
18954009 TCCCAGATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.50, C:0.32, G:0.02, T:0.16
Consensus pattern (19 bp):
AAAACCTCAAATTAAACCC
Found at i:18954352 original size:3 final size:3
Alignment explanation
Indices: 18954344--18954508 Score: 105
Period size: 3 Copynumber: 56.7 Consensus size: 3
18954334 TATAAATATA
* *
18954344 AAT AAT AAT AAT AAT AAT -GT AAT AAT AAT AAT AAG AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * **
18954390 AAT AGT GAC ATT AAT -AT TAT AAT ATAT ACA- AA- AAT ACC AA- AGA-
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT A-AT
* * *
18954433 AAG AA- AAA AAA ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
18954478 AAT AAT AAT AAC AAT AAT AAT -GT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18954509 AAACCGTCTA
Statistics
Matches: 130, Mismatches: 22, Indels: 20
0.76 0.13 0.12
Matches are distributed among these distances:
2 13 0.10
3 111 0.85
4 6 0.05
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:18954368 original size:14 final size:14
Alignment explanation
Indices: 18954349--18954375 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18954339 ATATAAATAA
18954349 TAATAATAATAATG
1 TAATAATAATAATG
18954363 TAATAATAATAAT
1 TAATAATAATAAT
18954376 AAGAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
TAATAATAATAATG
Found at i:18955387 original size:16 final size:17
Alignment explanation
Indices: 18955359--18955395 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
18955349 CATCAAATAT
18955359 TAAA-AAAATAAAAAAG
1 TAAATAAAATAAAAAAG
18955375 TAAATAAAA-AAAAAAG
1 TAAATAAAATAAAAAAG
18955391 TAAAT
1 TAAAT
18955396 GACTTGACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (17 bp):
TAAATAAAATAAAAAAG
Found at i:18965316 original size:50 final size:49
Alignment explanation
Indices: 18965223--18965330 Score: 144
Period size: 50 Copynumber: 2.2 Consensus size: 49
18965213 GCATCTACAC
* * **
18965223 CATTTTCATATCATTTCATTCTATGCATTATACTCATGCTCATGTTTTAA
1 CATTATCATATCATTTCATTCTATGCATCATACTCATAATCATG-TTTAA
* **
18965273 GATTATCATATCATTTCATTCTATGCATCATTTTCATAATCATGTTTAA
1 CATTATCATATCATTTCATTCTATGCATCATACTCATAATCATGTTTAA
18965322 CATTATCAT
1 CATTATCAT
18965331 TTGCATCATT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
49 13 0.26
50 37 0.74
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.47
Consensus pattern (49 bp):
CATTATCATATCATTTCATTCTATGCATCATACTCATAATCATGTTTAA
Found at i:18967382 original size:18 final size:17
Alignment explanation
Indices: 18967359--18967409 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
18967349 TGCTTGAAAA
18967359 AAAAAGAAAAAAAAAGTG
1 AAAAAGAAAAAAAAAG-G
*
18967377 AAAAAGAAAAAAAATGG
1 AAAAAGAAAAAAAAAGG
18967394 AAAAATGAAAAAAAAA
1 AAAAA-GAAAAAAAAA
18967410 AAAGAGGACT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.20
18 24 0.80
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAGG
Found at i:18968766 original size:42 final size:41
Alignment explanation
Indices: 18968690--18968772 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 41
18968680 ATTGTCGATG
18968690 AGCAATTTATTTTTTCAAAGTTAAGTTGCCTCTATTTAGAAA
1 AGCAATTTATTTTTTCAAAGTT-AGTTGCCTCTATTTAGAAA
*
18968732 AGCAATTTATTTTTTCAAAGTT-GTTTCGCTTCTATTTAGAA
1 AGCAATTTATTTTTTCAAAGTTAG-TT-GCCTCTATTTAGAA
18968773 GAGCTTTAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
40 1 0.03
41 2 0.05
42 35 0.92
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (41 bp):
AGCAATTTATTTTTTCAAAGTTAGTTGCCTCTATTTAGAAA
Found at i:18969801 original size:52 final size:52
Alignment explanation
Indices: 18969736--18969840 Score: 151
Period size: 52 Copynumber: 2.0 Consensus size: 52
18969726 TGGACAAGAA
*
18969736 GACTTGCAAAAGAAGAATT-CTAAGA-GAAACATGATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTAC-AAGAGGAAA-AGGATTCTTAATAGGTAAGTTT
* *
18969788 GACTTGTAGAAGAAGAATTACAAGAGGAAAAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTACAAGAGGAAAAGGATTCTTAATAGGTAAGTTT
18969840 G
1 G
18969841 TATGGTTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
52 43 0.90
53 5 0.10
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.28
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTACAAGAGGAAAAGGATTCTTAATAGGTAAGTTT
Found at i:18970093 original size:35 final size:36
Alignment explanation
Indices: 18970037--18970127 Score: 123
Period size: 35 Copynumber: 2.6 Consensus size: 36
18970027 CTGCATATGA
* * **
18970037 GTATGTGTTTGATTGTTTTGAAAAGGT-GCACAAGG
1 GTATGTGTTTGTTTGTGTTGAAAAAATGGCACAAGG
*
18970072 GTATGTGTTTGTTTGTGTTGAAAAAATGGCACATGG
1 GTATGTGTTTGTTTGTGTTGAAAAAATGGCACAAGG
18970108 GTATGTGTTTGTTTG-GTTGA
1 GTATGTGTTTGTTTGTGTTGA
18970128 GAATACTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
35 28 0.56
36 22 0.44
ACGTcount: A:0.22, C:0.04, G:0.32, T:0.42
Consensus pattern (36 bp):
GTATGTGTTTGTTTGTGTTGAAAAAATGGCACAAGG
Found at i:18972001 original size:50 final size:50
Alignment explanation
Indices: 18971905--18972001 Score: 117
Period size: 50 Copynumber: 1.9 Consensus size: 50
18971895 TCTCTTTTTG
* ***
18971905 AATTTCTAAATTTTTCACCATGAAGTCCTGTTTAGAAAATTTTTTTTCAA
1 AATTTCTAAATTTTTCACCATGAAGTCCTATTTAGAAAAAAATTTTTCAA
*
18971955 AATTTCTAAATTTTTGCACCATTTAAG-CCTATTTA-AAAAAAATTTTT
1 AATTTCTAAATTTTT-CACCA-TGAAGTCCTATTTAGAAAAAAATTTTT
18972002 TTGGGAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 24 0.60
51 12 0.30
52 4 0.10
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (50 bp):
AATTTCTAAATTTTTCACCATGAAGTCCTATTTAGAAAAAAATTTTTCAA
Found at i:18972542 original size:198 final size:199
Alignment explanation
Indices: 18972195--18972565 Score: 463
Period size: 198 Copynumber: 1.9 Consensus size: 199
18972185 AAAAGAATAC
* *
18972195 AATTACTTGTATTGAAATTTCATTTAAAATTATTCCACCATTTAAGCCAAATTTAGAAGAAATTT
1 AATTACTTGTATTAAAATTTCATCTAAAATTATTCCACCATTTAA-CCAAATTTAGAAGAAATTT
* * * *
18972260 ATCACCTAGAGATTTCTTAGAAAATTTACAATTTGAAATTTCTAAGAATCTCATCCTTGGGTAAT
65 ATCACCTAGAGAATTCTTAGAAAATTTACAATTTGAAATTTCTAAGAATCTCATCATTAGATAAT
**
18972325 TTGTATTTAATTCCAAAATTTTTTTATTTTTTATTAT-TTTTTAGATTTTTTTTTTAAAAAAATA
130 TAATATTTAATTCCAAAA-TTTTTTATTTTTTATTATATTTTTAGATTTTTTTTTTAAAAAAATA
18972389 AATATT
194 AATATT
*
18972395 AATTAC-TGTTATTAAAATTTTATCT-AAATTATTCCACCATTTGGAA-CAAATTTAGACA-AAA
1 AATTACTTG-TATTAAAATTTCATCTAAAATTATTCCACCATTT--AACCAAATTTAGA-AGAAA
* * * * *
18972456 TTTCTCACTTAG-GAATT-TTATTAAAATTTACCATTTGAAATTTCTATA-AATTTCATCATTAG
62 TTTATCACCTAGAGAATTCTTA-GAAAATTTACAATTTGAAATTTCTA-AGAATCTCATCATTAG
*
18972518 ATAATTAATATTT-ATTCTCAAAATTTTTTATTTTTTATTTTATTTTTA
125 ATAATTAATATTTAATTC-CAAAATTTTTTATTTTTTATTATATTTTTA
18972566 TTAAATTAAA
Statistics
Matches: 148, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
197 24 0.16
198 59 0.40
199 43 0.29
200 20 0.14
201 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.47
Consensus pattern (199 bp):
AATTACTTGTATTAAAATTTCATCTAAAATTATTCCACCATTTAACCAAATTTAGAAGAAATTTA
TCACCTAGAGAATTCTTAGAAAATTTACAATTTGAAATTTCTAAGAATCTCATCATTAGATAATT
AATATTTAATTCCAAAATTTTTTATTTTTTATTATATTTTTAGATTTTTTTTTTAAAAAAATAAA
TATT
Found at i:18972938 original size:31 final size:31
Alignment explanation
Indices: 18972900--18972971 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
18972890 GAATTCTTTT
*
18972900 TCCTCTCTCTTTCCTCGTTTCTTTTCTCTCC
1 TCCTCTCTCTCTCCTCGTTTCTTTTCTCTCC
18972931 TCCTCTCTCTCTCCTCGTTTCTTTTCTCTCC
1 TCCTCTCTCTCTCCTCGTTTCTTTTCTCTCC
18972962 TCCTCTCTCT
1 TCCTCTCTCT
18972972 AAAAAAATCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.00, C:0.44, G:0.03, T:0.53
Consensus pattern (31 bp):
TCCTCTCTCTCTCCTCGTTTCTTTTCTCTCC
Found at i:18972943 original size:14 final size:14
Alignment explanation
Indices: 18972924--18972971 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
18972914 TCGTTTCTTT
18972924 TCTCTCCTCCTCTC
1 TCTCTCCTCCTCTC
* *
18972938 TCTCTCCTCGTTTCTTT
1 TCTCTCCTC--CTC-TC
18972955 TCTCTCCTCCTCTC
1 TCTCTCCTCCTCTC
18972969 TCT
1 TCT
18972972 AAAAAAATCC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 13 0.48
15 2 0.07
16 2 0.07
17 10 0.37
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (14 bp):
TCTCTCCTCCTCTC
Found at i:18972960 original size:17 final size:17
Alignment explanation
Indices: 18972911--18972963 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
18972901 CCTCTCTCTT
18972911 TCCTCGTTTCTTTTCTC
1 TCCTCGTTTCTTTTCTC
* *
18972928 TCCTC--CTC-TCTCTC
1 TCCTCGTTTCTTTTCTC
18972942 TCCTCGTTTCTTTTCTC
1 TCCTCGTTTCTTTTCTC
18972959 TCCTC
1 TCCTC
18972964 CTCTCTCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 10 0.34
15 2 0.07
16 2 0.07
17 15 0.52
ACGTcount: A:0.00, C:0.43, G:0.04, T:0.53
Consensus pattern (17 bp):
TCCTCGTTTCTTTTCTC
Found at i:18973376 original size:12 final size:11
Alignment explanation
Indices: 18973361--18973419 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
18973351 TTATATTGAA
18973361 AAAATAATAATT
1 AAAATAA-AATT
18973373 AAAATAAAATT
1 AAAATAAAATT
* * *
18973384 CAGAA-CAAATA
1 -AAAATAAAATT
18973395 AAAATAAAATT
1 AAAATAAAATT
18973406 -AAAT-AAATT
1 AAAATAAAATT
18973415 AAAAT
1 AAAAT
18973420 TGGCCAATCT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 5 0.13
10 11 0.29
11 12 0.32
12 10 0.26
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.25
Consensus pattern (11 bp):
AAAATAAAATT
Found at i:18976665 original size:21 final size:20
Alignment explanation
Indices: 18976623--18976673 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
18976613 TCCAAAAAAA
18976623 GGATCGATCCCCCCATATAGG
1 GGATCGATCCCCCCATATA-G
* *
18976644 GGATCGATCCCCTCTTCA-AG
1 GGATCGATCCCCCCAT-ATAG
18976664 GGATCGATCC
1 GGATCGATCC
18976674 GATCGATCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 15 0.56
22 1 0.04
ACGTcount: A:0.22, C:0.33, G:0.24, T:0.22
Consensus pattern (20 bp):
GGATCGATCCCCCCATATAG
Found at i:18978926 original size:12 final size:13
Alignment explanation
Indices: 18978909--18978937 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18978899 AAAATTTTAT
18978909 TTTCTTTC-TTTC
1 TTTCTTTCTTTTC
18978921 TTTCTTTCTTTTC
1 TTTCTTTCTTTTC
18978934 TTTC
1 TTTC
18978938 AGTATTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:18981239 original size:33 final size:33
Alignment explanation
Indices: 18981202--18981264 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
18981192 CTTGAATTTG
**
18981202 GTTGTTG-TGTAAGTTTTTATTATTATTATTGTT
1 GTTGTTGTTGT-AGTTGCTATTATTATTATTGTT
*
18981235 GTTGTTGTTGTTGTTGCTATTATTATTATT
1 GTTGTTGTTGTAGTTGCTATTATTATTATT
18981265 ATTATCTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 23 0.88
34 3 0.12
ACGTcount: A:0.16, C:0.02, G:0.19, T:0.63
Consensus pattern (33 bp):
GTTGTTGTTGTAGTTGCTATTATTATTATTGTT
Found at i:18981400 original size:25 final size:26
Alignment explanation
Indices: 18981352--18981402 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
18981342 AATAATCGAG
*
18981352 TTTTTTTTAGTATAAAAATTGAGCTT
1 TTTTTTTTAGTATAAAAATCGAGCTT
**
18981378 TTTTTTTTA-TATATTAATCGAGCTT
1 TTTTTTTTAGTATAAAAATCGAGCTT
18981403 AATTGAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (26 bp):
TTTTTTTTAGTATAAAAATCGAGCTT
Found at i:18982273 original size:11 final size:11
Alignment explanation
Indices: 18982234--18982388 Score: 102
Period size: 11 Copynumber: 14.1 Consensus size: 11
18982224 TTATAATTTT
*
18982234 ATAATAAATCA
1 ATAATAAATTA
*
18982245 TTAAT-AATGTA
1 ATAATAAAT-TA
*
18982256 GTAATAAATTA
1 ATAATAAATTA
* *
18982267 CTCATAAATTA
1 ATAATAAATTA
18982278 ATAATAAA-TA
1 ATAATAAATTA
*
18982288 ATCAATAATTTA
1 AT-AATAAATTA
*
18982300 ATAATAAATCA
1 ATAATAAATTA
* *
18982311 CTCATAAATTA
1 ATAATAAATTA
18982322 ATAATAAATTA
1 ATAATAAATTA
* *
18982333 ATGATAATTTA
1 ATAATAAATTA
*
18982344 ATATTAAA-TA
1 ATAATAAATTA
* *
18982354 GTTGATAACA-TA
1 -ATAATAA-ATTA
*
18982366 ACAATAAATTA
1 ATAATAAATTA
*
18982377 ATAATAATTTA
1 ATAATAAATTA
18982388 A
1 A
18982389 GTGACACTCA
Statistics
Matches: 109, Mismatches: 28, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
10 10 0.09
11 89 0.82
12 10 0.09
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (11 bp):
ATAATAAATTA
Found at i:18982295 original size:44 final size:44
Alignment explanation
Indices: 18982234--18982352 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 44
18982224 TTATAATTTT
* * * *
18982234 ATAATAAATCATTAATAATGTAGTAATAAATTACTCATAAATTA
1 ATAATAAATAATCAATAATGTAATAATAAATCACTCATAAATTA
*
18982278 ATAATAAATAATCAATAATTTAATAATAAATCACTCATAAATTA
1 ATAATAAATAATCAATAATGTAATAATAAATCACTCATAAATTA
* * *
18982322 ATAATAAATTAAT-GATAATTTAATATTAAAT
1 ATAATAAA-TAATCAATAATGTAATAATAAAT
18982353 AGTTGATAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 63 0.94
45 4 0.06
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.37
Consensus pattern (44 bp):
ATAATAAATAATCAATAATGTAATAATAAATCACTCATAAATTA
Found at i:18982339 original size:22 final size:22
Alignment explanation
Indices: 18982209--18982388 Score: 106
Period size: 22 Copynumber: 8.4 Consensus size: 22
18982199 AAATCATTAG
*
18982209 TAAATTAATAATAAGTT-ATAA
1 TAAATTAATAATAAATTAATAA
* * *
18982230 T---TTTATAATAAATCATTAA
1 TAAATTAATAATAAATTAATAA
* * *
18982249 T-AATGTAGTAATAAATTACTCA
1 TAAAT-TAATAATAAATTAATAA
18982271 TAAATTAATAATAAA-TAATCAA
1 TAAATTAATAATAAATTAAT-AA
* * * *
18982293 TAATTTAATAATAAATCACTCA
1 TAAATTAATAATAAATTAATAA
*
18982315 TAAATTAATAATAAATTAATGA
1 TAAATTAATAATAAATTAATAA
* * * *
18982337 TAATTTAATATTAAA-TAGTTGA
1 TAAATTAATAATAAATTA-ATAA
*
18982359 TAACA-TAACAATAAATTAATAA
1 TAA-ATTAATAATAAATTAATAA
*
18982381 TAATTTAA
1 TAAATTAA
18982389 GTGACACTCA
Statistics
Matches: 119, Mismatches: 29, Indels: 21
0.70 0.17 0.12
Matches are distributed among these distances:
18 10 0.08
19 4 0.03
21 7 0.06
22 91 0.76
23 7 0.06
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (22 bp):
TAAATTAATAATAAATTAATAA
Found at i:18982846 original size:21 final size:21
Alignment explanation
Indices: 18982808--18982848 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18982798 ATCAAACTAA
* *
18982808 TATTGAAGGTTAATAAAATTG
1 TATTGAAAGTTAACAAAATTG
*
18982829 TATTGAAAGTTACCAAAATT
1 TATTGAAAGTTAACAAAATT
18982849 TTCTCAAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.37
Consensus pattern (21 bp):
TATTGAAAGTTAACAAAATTG
Found at i:18983000 original size:22 final size:22
Alignment explanation
Indices: 18982975--18983055 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 22
18982965 AACTGTTAGC
18982975 ATTTATTATTATCAAAAATATT
1 ATTTATTATTATCAAAAATATT
* *
18982997 ATTTATTGAATTGAACTTTTAGAAATATT
1 ATTTATT--ATT--A---TCAAAAATATT
*
18983026 ATTTATTGTTATCAAAAATATT
1 ATTTATTATTATCAAAAATATT
18983048 ATTT-TTAT
1 ATTTATTAT
18983056 AAAAAATATC
Statistics
Matches: 46, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
21 3 0.07
22 20 0.43
24 3 0.07
25 1 0.02
26 1 0.02
27 2 0.04
29 16 0.35
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.52
Consensus pattern (22 bp):
ATTTATTATTATCAAAAATATT
Found at i:18983055 original size:18 final size:18
Alignment explanation
Indices: 18983028--18983064 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18983018 GAAATATTAT
*
18983028 TTATTGTTATCAAAAATA
1 TTATTGTTATAAAAAATA
*
18983046 TTATTTTTATAAAAAATA
1 TTATTGTTATAAAAAATA
18983064 T
1 T
18983065 CACTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
TTATTGTTATAAAAAATA
Found at i:18989056 original size:16 final size:16
Alignment explanation
Indices: 18989032--18989064 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18989022 AAAATCATCG
*
18989032 TAAATCATCATTATCA
1 TAAAGCATCATTATCA
18989048 TAAAGCATCATTATCA
1 TAAAGCATCATTATCA
18989064 T
1 T
18989065 TGGTTTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.36
Consensus pattern (16 bp):
TAAAGCATCATTATCA
Found at i:18991525 original size:2 final size:2
Alignment explanation
Indices: 18991520--18991550 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
18991510 TGTGTGTGTG
*
18991520 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18991551 GATTTTCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18991762 original size:29 final size:29
Alignment explanation
Indices: 18991724--18991782 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
18991714 AATTTTAGTG
*
18991724 AAATATTTAATGTGACATCTAAATTTTAA
1 AAATATTTAATGTGACATCTAAATTATAA
* * * *
18991753 AAATTTTTAATTTGATATTTAAATTATAA
1 AAATATTTAATGTGACATCTAAATTATAA
18991782 A
1 A
18991783 TTTATTAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (29 bp):
AAATATTTAATGTGACATCTAAATTATAA
Found at i:18998969 original size:23 final size:23
Alignment explanation
Indices: 18998943--18998988 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18998933 AAAAGTTTTG
* *
18998943 ATTTTAATTTATTTAATATTAAA
1 ATTTAAATTTATTTAAAATTAAA
*
18998966 ATTTAAATTTTTTTAAAATTAAA
1 ATTTAAATTTATTTAAAATTAAA
18998989 GTTAAATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTTAAATTTATTTAAAATTAAA
Found at i:18999134 original size:22 final size:22
Alignment explanation
Indices: 18999106--18999149 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
18999096 TTGGTTGAAG
18999106 TTAACAAATGAGGAGTATTTGC
1 TTAACAAATGAGGAGTATTTGC
18999128 TTAACAAATGAGGAGTATTTGC
1 TTAACAAATGAGGAGTATTTGC
18999150 ACTTTGACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (22 bp):
TTAACAAATGAGGAGTATTTGC
Found at i:19001851 original size:30 final size:30
Alignment explanation
Indices: 19001815--19001897 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
19001805 AGACACTTTA
*
19001815 GTTTGTTGACGCTAAATCAGAGTCATTTTT
1 GTTTGTTGACACTAAATCAGAGTCATTTTT
*
19001845 GTTTGTTGACACTAAATCAGAGCCATTTTT
1 GTTTGTTGACACTAAATCAGAGTCATTTTT
*
19001875 GTTTATTGACACTAAATCAGAGT
1 GTTTGTTGACACTAAATCAGAGT
19001898 TACGCTGAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (30 bp):
GTTTGTTGACACTAAATCAGAGTCATTTTT
Found at i:19006652 original size:31 final size:31
Alignment explanation
Indices: 19006614--19006672 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
19006604 TTTGTATCTT
* *
19006614 TAGAATTAAGTATTTGTATTCTTAGAATCCC
1 TAGAATTAAGTATTTGTATCCCTAGAATCCC
19006645 TAGAATTAAGTATTTGTATCCCTAGAAT
1 TAGAATTAAGTATTTGTATCCCTAGAAT
19006673 TAATGACAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (31 bp):
TAGAATTAAGTATTTGTATCCCTAGAATCCC
Found at i:19006865 original size:23 final size:23
Alignment explanation
Indices: 19006820--19006865 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
19006810 ATACATTTAG
19006820 TTTTATTCTTAGTTTTTCACACAA
1 TTTTATTCTTAGTTTTT-ACACAA
*
19006844 TTTTATCTTTTAGTTTTT-CACA
1 TTTTAT-TCTTAGTTTTTACACA
19006866 TAGTATCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 6 0.30
25 10 0.50
ACGTcount: A:0.22, C:0.15, G:0.04, T:0.59
Consensus pattern (23 bp):
TTTTATTCTTAGTTTTTACACAA
Found at i:19008466 original size:203 final size:202
Alignment explanation
Indices: 19008092--19008498 Score: 751
Period size: 203 Copynumber: 2.0 Consensus size: 202
19008082 TGGATTATAT
*
19008092 ATGAGTCATCTTTTGTTAATACTCCATAGCATAATGGAATGGCAAAGAGGGAAAACAACCATTTA
1 ATGAGTCATCTTTTGTTAATAATCCATAGCATAATGGAATGGCAAAGAGGGAAAACAACCATTTA
* *
19008157 CTAGCCACAACCTAAGCTTTACTTTTCAAGCAAACGTGCCTATATCCTATTGGGAGAAGTTATTT
66 CTAGCCACAACCCAAGCTTTACTTTTCAAGCAAACGTGCCTATATCCTATTGGGAGAAGCTATTT
19008222 TCACTGCCATACACATTATAAATAGGTTACCTTCAAAAGTTTTAAGATTTAAAACTCCATAGAAC
131 TCACTGCCATACACATTATAAATAGGTTACCTTCAAAAGTTTTAAGATTTAAAACTCCATAGAAC
19008287 TACTCTC
196 TACTCTC
*
19008294 ATGAGTTATCTTTTGTTAATAATCCTATAGCATAATGGAATGGCAAAGAGGGAAAACAACCATTT
1 ATGAGTCATCTTTTGTTAATAATCC-ATAGCATAATGGAATGGCAAAGAGGGAAAACAACCATTT
19008359 ACTAGCCACAACCCAAGCTTTACTTTTCAAGCAAACGTGCCTATATCCTATTGGGAGAAGCTATT
65 ACTAGCCACAACCCAAGCTTTACTTTTCAAGCAAACGTGCCTATATCCTATTGGGAGAAGCTATT
*
19008424 TTCACTGCCATACACATTATAAATAGGTTACCTTCAAAAGTTTTAGGATTTAAAACTCCATAGAA
130 TTCACTGCCATACACATTATAAATAGGTTACCTTCAAAAGTTTTAAGATTTAAAACTCCATAGAA
*
19008489 CTATTCTC
195 CTACTCTC
19008497 AT
1 AT
19008499 AATTCTTTCC
Statistics
Matches: 198, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
202 23 0.12
203 175 0.88
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (202 bp):
ATGAGTCATCTTTTGTTAATAATCCATAGCATAATGGAATGGCAAAGAGGGAAAACAACCATTTA
CTAGCCACAACCCAAGCTTTACTTTTCAAGCAAACGTGCCTATATCCTATTGGGAGAAGCTATTT
TCACTGCCATACACATTATAAATAGGTTACCTTCAAAAGTTTTAAGATTTAAAACTCCATAGAAC
TACTCTC
Found at i:19009537 original size:99 final size:99
Alignment explanation
Indices: 19009366--19009560 Score: 363
Period size: 99 Copynumber: 2.0 Consensus size: 99
19009356 TTTGTGTCAT
* *
19009366 TTAAAAAATTCTCACCATTCCACAAAAACTTTTTTGTAAGCGTAAACACTATTTCTATTCCAATT
1 TTAAAAAATTCTCACCATCCCACAAAAACTTGTTTGTAAGCGTAAACACTATTTCTATTCCAATT
19009431 ACATTATCTGAGGTATTATCTAGTGAAAAATGGA
66 ACATTATCTGAGGTATTATCTAGTGAAAAATGGA
*
19009465 TTAAAAAATTCTCACCATCCCACAAAAACTTGTTTGTAAGCGTAAATACTATTTCTATTCCAATT
1 TTAAAAAATTCTCACCATCCCACAAAAACTTGTTTGTAAGCGTAAACACTATTTCTATTCCAATT
19009530 ACATTATCTGAGGTATTATCTAGTGAAAAAT
66 ACATTATCTGAGGTATTATCTAGTGAAAAAT
19009561 AGAGGCCTTA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.35
Consensus pattern (99 bp):
TTAAAAAATTCTCACCATCCCACAAAAACTTGTTTGTAAGCGTAAACACTATTTCTATTCCAATT
ACATTATCTGAGGTATTATCTAGTGAAAAATGGA
Found at i:19011170 original size:18 final size:18
Alignment explanation
Indices: 19011144--19011179 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19011134 TAAAAATTTT
*
19011144 TATTAATTTTTTATTTAA
1 TATTAATTTTTAATTTAA
*
19011162 TATTTATTTTTAATTTAA
1 TATTAATTTTTAATTTAA
19011180 ACTTTGAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTAATTTTTAATTTAA
Found at i:19011619 original size:17 final size:17
Alignment explanation
Indices: 19011597--19011631 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19011587 ATCAAAATTT
19011597 TTTATTATATT-TTATTA
1 TTTATTA-ATTATTATTA
19011614 TTTATTAATTATTATTA
1 TTTATTAATTATTATTA
19011631 T
1 T
19011632 AAAACAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTAATTATTATTA
Found at i:19012936 original size:49 final size:49
Alignment explanation
Indices: 19012851--19012990 Score: 174
Period size: 49 Copynumber: 2.9 Consensus size: 49
19012841 TTAAAAATTT
* * * *
19012851 AAAAAGGCTCATCTAAGCAGAGGTTCGACAATTTTAAAAATCCATCTTG
1 AAAAAGGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATCCATCTTG
* * *
19012900 AAAAAGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAATTTTCATCTTG
1 AAAAAGGCTCATCTAAGTAGAGGCTCAACAACTTTAAAA-ATCCATCTTG
* * *
19012950 GAAAAGG-TCTTTTAAGTAGAGGCTCAACAACTTTAAAAATC
1 AAAAAGGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATC
19012991 TCTTATGTTC
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
48 1 0.01
49 62 0.81
50 14 0.18
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (49 bp):
AAAAAGGCTCATCTAAGTAGAGGCTCAACAACTTTAAAAATCCATCTTG
Found at i:19021249 original size:14 final size:16
Alignment explanation
Indices: 19021215--19021250 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
19021205 ACTTTGGTTA
19021215 CATAGAATTTATCATC
1 CATAGAATTTATCATC
19021231 C-TAGAA-TTAT-ATC
1 CATAGAATTTATCATC
19021244 CATAGAA
1 CATAGAA
19021251 GCGTTTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.21
14 9 0.47
15 5 0.26
16 1 0.05
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (16 bp):
CATAGAATTTATCATC
Found at i:19024790 original size:18 final size:18
Alignment explanation
Indices: 19024764--19024799 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19024754 TAAAAATTTT
*
19024764 TATTAATTTTTTATTTAA
1 TATTAATTTTTAATTTAA
*
19024782 TATTTATTTTTAATTTAA
1 TATTAATTTTTAATTTAA
19024800 ACTTTGAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTAATTTTTAATTTAA
Found at i:19026269 original size:14 final size:14
Alignment explanation
Indices: 19026242--19026292 Score: 70
Period size: 13 Copynumber: 3.8 Consensus size: 14
19026232 GAATCAGATA
19026242 AAGGAAAAAG-AAG
1 AAGGAAAAAGAAAG
19026255 AAGGAAAAAGAAAG
1 AAGGAAAAAGAAAG
* *
19026269 AAAGAAAAAAAAAG
1 AAGGAAAAAGAAAG
19026283 AA-GAAAAAGA
1 AAGGAAAAAGA
19026293 GAAAATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
13 17 0.50
14 17 0.50
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAGGAAAAAGAAAG
Found at i:19026295 original size:21 final size:22
Alignment explanation
Indices: 19026262--19026303 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
19026252 AAGAAGGAAA
19026262 AAGAAAGAAAGAAAA-AAAAAG
1 AAGAAAGAAAGAAAATAAAAAG
19026283 AAGAAA-AAGAGAAAATAAAAA
1 AAGAAAGAA-AGAAAATAAAAA
19026304 TAAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 12 0.63
22 5 0.26
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (22 bp):
AAGAAAGAAAGAAAATAAAAAG
Found at i:19028490 original size:3 final size:3
Alignment explanation
Indices: 19028482--19028542 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
19028472 TGGGACTCTT
*
19028482 TTA TTA TTA TTA TTA TTA TTA -TA ATA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19028529 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
19028543 CATAAAAGGA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:19029291 original size:19 final size:20
Alignment explanation
Indices: 19029258--19029300 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19029248 TTTCTTTTTT
19029258 TTTTTCAGCTCTT-CCAGCTC
1 TTTTTCAGCTCTTCCCAG-TC
19029278 TTTTTCAGCT-TTCCCAGTC
1 TTTTTCAGCTCTTCCCAGTC
19029297 TTTT
1 TTTT
19029301 CCTCTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.09, C:0.30, G:0.09, T:0.51
Consensus pattern (20 bp):
TTTTTCAGCTCTTCCCAGTC
Found at i:19029578 original size:20 final size:23
Alignment explanation
Indices: 19029539--19029580 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 23
19029529 TTTTTTAATT
19029539 TTTTTAGCAGTTTATTTCTTCTC
1 TTTTTAGCAGTTTATTTCTTCTC
19029562 TTTTTA-CA-TTT-TTTCTTCT
1 TTTTTAGCAGTTTATTTCTTCT
19029581 TTTCTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 2 0.11
23 6 0.32
ACGTcount: A:0.12, C:0.17, G:0.05, T:0.67
Consensus pattern (23 bp):
TTTTTAGCAGTTTATTTCTTCTC
Found at i:19031343 original size:22 final size:20
Alignment explanation
Indices: 19031294--19031345 Score: 79
Period size: 19 Copynumber: 2.5 Consensus size: 20
19031284 CCCTAAAATC
19031294 CCTAGAATTAAGTATTTG-T
1 CCTAGAATTAAGTATTTGAT
19031313 CCTAGAATTAAGTATTTGTAT
1 CCTAGAATTAAGTATTTG-AT
19031334 CCTTAGAATTAA
1 CC-TAGAATTAA
19031346 AAATAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.60
21 3 0.10
22 9 0.30
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (20 bp):
CCTAGAATTAAGTATTTGAT
Found at i:19033762 original size:23 final size:25
Alignment explanation
Indices: 19033713--19033764 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
19033703 GTGATATTTT
*
19033713 ATGTTTTATTTTGAAAGACTTTTTC
1 ATGTTTTATTTTGAAAGACTTTATC
*
19033738 ATGTTTTATTTT-CAA-ACTTTATC
1 ATGTTTTATTTTGAAAGACTTTATC
19033761 ATGT
1 ATGT
19033765 CAAACTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 11 0.44
24 2 0.08
25 12 0.48
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.56
Consensus pattern (25 bp):
ATGTTTTATTTTGAAAGACTTTATC
Found at i:19033884 original size:17 final size:17
Alignment explanation
Indices: 19033858--19033891 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19033848 TTGATAATTA
*
19033858 TTTAATTTTTAAAAAAT
1 TTTAAATTTTAAAAAAT
*
19033875 TTTAAATTTTTAAAAAT
1 TTTAAATTTTAAAAAAT
19033892 ATAGTTTATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAATTTTAAAAAAT
Found at i:19044171 original size:21 final size:21
Alignment explanation
Indices: 19044145--19044191 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
19044135 TCTAAAATTA
19044145 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
**
19044166 ATAAAATATTATTTTTTTAAT
1 ATAAAATATTATTTTTAAAAT
19044187 ATAAA
1 ATAAA
19044192 TATAAGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:19044210 original size:16 final size:16
Alignment explanation
Indices: 19044189--19044222 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19044179 TTTTTAATAT
**
19044189 AAATATAAGTTTAAAA
1 AAATATAAAATTAAAA
19044205 AAATATAAAATTAAAA
1 AAATATAAAATTAAAA
19044221 AA
1 AA
19044223 TTAATTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATATAAAATTAAAA
Found at i:19059457 original size:62 final size:62
Alignment explanation
Indices: 19059382--19059505 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
19059372 AAAGAAAAAA
19059382 GAAACAGATACCCAAACTCAAAAACAACATCCATCCCAAAATTTCCCCTAATCATATTGTAT
1 GAAACAGATACCCAAACTCAAAAACAACATCCATCCCAAAATTTCCCCTAATCATATTGTAT
*
19059444 GAAACAGATACCCAAACTTAAAAACAACATCCATCCCAAAATTTCCCCTAATCATATTGTAT
1 GAAACAGATACCCAAACTCAAAAACAACATCCATCCCAAAATTTCCCCTAATCATATTGTAT
19059506 TACATTGCTG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (62 bp):
GAAACAGATACCCAAACTCAAAAACAACATCCATCCCAAAATTTCCCCTAATCATATTGTAT
Found at i:19061849 original size:21 final size:21
Alignment explanation
Indices: 19061817--19061862 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
19061807 AATTTGATAA
19061817 AAATATTTTAATTAATTAAATT
1 AAATATTTTAATTAATTAAA-T
*
19061839 AAATA-TTTAATTACTTAAAT
1 AAATATTTTAATTAATTAAAT
19061859 AAAT
1 AAAT
19061863 TAATTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 5 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATATTTTAATTAATTAAAT
Found at i:19061865 original size:17 final size:17
Alignment explanation
Indices: 19061825--19061867 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
19061815 AAAAATATTT
19061825 TAATTAATTAAATTAAA
1 TAATTAATTAAATTAAA
* *
19061842 TATTTAATT-ACTTAAA
1 TAATTAATTAAATTAAA
19061858 TAAATTAATT
1 T-AATTAATT
19061868 GAAAATTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATTAATTAAATTAAA
Found at i:19066513 original size:13 final size:13
Alignment explanation
Indices: 19066495--19066524 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19066485 TGTTCCTTTC
19066495 AAAATTAAAAACA
1 AAAATTAAAAACA
*
19066508 AAAATTAAAAAGA
1 AAAATTAAAAACA
19066521 AAAA
1 AAAA
19066525 AAAAAAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAATTAAAAACA
Found at i:19067991 original size:370 final size:370
Alignment explanation
Indices: 19067295--19068280 Score: 1101
Period size: 370 Copynumber: 2.7 Consensus size: 370
19067285 GCCGTGACGA
* * * ** * * * *
19067295 TAAGCTTCAAACTCGCACGACTCCGAGACCCAGACATCCACTCGTTCGATATCTCATATCAGTCT
1 TAAGCTCCAAACCCGCACGACTTCGAGACCTGGGCATCCACTCATTCGATGTCTCAGATCAGTCT
* * * * * * * * *
19067360 AACTATCATGATTCACACCTTTTATGCGATATTATTCGCTCTAG-CCCCTTAGCCTCATGATTTT
66 ACCTACCATGATTCACACC-TTTGTGAGGTATTGTTCGCTCTGGCCCCCCTAGCCTCACGATTTT
* ** ** * *
19067424 ATCTTACAAAAGACACCTTTCAAGGAAGAGATGGTGTTAACCCTTTTATACCCTAGTGACCTTCC
130 ATCCTACAAAAGGTACCTCACAAGGAAGAGGTGGTGTGAACCCTTTTATACCC-AGTGACCTTCC
* * * *
19067489 TTTTGTATTCGATGTGGGATTCAGGATTCTTT-TTAAGGTCCGTGACATTCTCTCCCACCCAACC
194 TTTTATATTCGATGTGGGATTCAGGACTCTTTCTTAA-GTCTGTGACATTCTCTCCCACCCAAAC
* * * * *
19067553 TCATGATGTTCTCGTCATGAAGGCTGGCCACCCTGTCTACCTCCTTCAAGGCGCTTCGCATGGAT
258 TCATGACGCTCTCGTCACGAAGGCTGGCCACCCTGCCTACCTCCTTCAAGGCGCTTCGCATAGAT
* * **
19067618 CGAATGGTTTAGGGCTGGCTCTAATACC-ACTTGTCATGGGTCGAGACT
323 CGAACGATTTAGCACTGGCTCTAATACCAAC-TGTCATGGGTCGAGACT
** * * *
19067666 TAAGCT-CTGACCCGCACGACTTCGAGACCTGGGCATCCACTCATCCAATGTCTCAGATCAATCT
1 TAAGCTCCAAACCCGCACGACTTCGAGACCTGGGCATCCACTCATTCGATGTCTCAGATCAGTCT
* *
19067730 ACCTACCATGGTTCACACCCTTGTGAGGTATTGTTCGCTCTGGCCCCCCTAGCCTCACGATTTTA
66 ACCTACCATGATTCACACCTTTGTGAGGTATTGTTCGCTCTGGCCCCCCTAGCCTCACGATTTTA
* *
19067795 TCCTACAAAAGGTACCTCACAAGGAAGAGGTGGTATGAACCCTTTTATAGCCCAGTGACCCTCCT
131 TCCTACAAAAGGTACCTCACAAGGAAGAGGTGGTGTGAACCCTTTTATA-CCCAGTGACCTTCCT
* * * **
19067860 ATTATGTTCGATGTGGGATTCAGGACTCTTTCTTAAGTCTATGACATTCTCTCTTACCCAAACTC
195 TTTATATTCGATGTGGGATTCAGGACTCTTTCTTAAGTCTGTGACATTCTCTCCCACCCAAACTC
* ** * *
19067925 ATGACGCTCTCGTCACGGAGGCTGGCCACTTTGCCTACCTCTCTT-GAGGCGCTTGGCATAGATC
260 ATGACGCTCTCGTCACGAAGGCTGGCCACCCTGCCTACCTC-CTTCAAGGCGCTTCGCATAGATC
* *
19067989 GAACGATTTAGCATTGGCTCTGATACCAACTGTCATGGGTCGAGACT
324 GAACGATTTAGCACTGGCTCTAATACCAACTGTCATGGGTCGAGACT
* * * * * * * *
19068036 TAAGCTCCAAACCCGTAC-AGCTTCGGGA-TTGAGCATCCACTCATTTGACGTCCCAGATCAGCC
1 TAAGCTCCAAACCCGCACGA-CTTCGAGACCTGGGCATCCACTCATTCGATGTCTCAGATCAGTC
* * *
19068099 TACCT-CACTTGATTCACACCTTTGTGAGGTATTG-TCAGCTCTGGCCCTCTCTGGCCTCACGAT
65 TACCTAC-CATGATTCACACCTTTGTGAGGTATTGTTC-GCTCTGGCCC-CCCTAGCCTCACGAT
* * * *
19068162 TTTATCCTACAAAAGGTGCCTCATAAGGAAGAGGTGTTGTGAACCCTTATATACCTCAGTGACCT
127 TTTATCCTACAAAAGGTACCTCACAAGGAAGAGGTGGTGTGAACCCTTTTATACC-CAGTGACCT
* * *
19068227 TTCTTTTATATTCGATGTGGGATTCAGGACTC-CTCTTTAAGTTTGTGACATTCT
191 TCCTTTTATATTCGATGTGGGATTCAGGACTCTTTC-TTAAGTCTGTGACATTCT
19068281 TGTCACGAGT
Statistics
Matches: 515, Mismatches: 88, Indels: 24
0.82 0.14 0.04
Matches are distributed among these distances:
369 21 0.04
370 347 0.67
371 147 0.29
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (370 bp):
TAAGCTCCAAACCCGCACGACTTCGAGACCTGGGCATCCACTCATTCGATGTCTCAGATCAGTCT
ACCTACCATGATTCACACCTTTGTGAGGTATTGTTCGCTCTGGCCCCCCTAGCCTCACGATTTTA
TCCTACAAAAGGTACCTCACAAGGAAGAGGTGGTGTGAACCCTTTTATACCCAGTGACCTTCCTT
TTATATTCGATGTGGGATTCAGGACTCTTTCTTAAGTCTGTGACATTCTCTCCCACCCAAACTCA
TGACGCTCTCGTCACGAAGGCTGGCCACCCTGCCTACCTCCTTCAAGGCGCTTCGCATAGATCGA
ACGATTTAGCACTGGCTCTAATACCAACTGTCATGGGTCGAGACT
Found at i:19068605 original size:21 final size:21
Alignment explanation
Indices: 19068573--19068619 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
19068563 AAATTTGATA
19068573 AAATATTTTAATTAATTAAATT
1 AAATATTTTAATTAATTAAA-T
*
19068595 AAATA-TTTAATTACTTAAAT
1 AAATATTTTAATTAATTAAAT
19068615 AAATA
1 AAATA
19068620 AATTGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.25
21 13 0.54
22 5 0.21
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATATTTTAATTAATTAAAT
Found at i:19071114 original size:9 final size:9
Alignment explanation
Indices: 19071102--19071154 Score: 61
Period size: 9 Copynumber: 5.9 Consensus size: 9
19071092 CACGTTTCAT
19071102 ATGTTTAAC
1 ATGTTTAAC
*
19071111 ATGTTAAAC
1 ATGTTTAAC
*
19071120 ATGTTTGAC
1 ATGTTTAAC
19071129 ATGTTTAAC
1 ATGTTTAAC
* *
19071138 ATGCTAAAC
1 ATGTTTAAC
*
19071147 AGGTTTAA
1 ATGTTTAA
19071155 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (9 bp):
ATGTTTAAC
Found at i:19086818 original size:20 final size:20
Alignment explanation
Indices: 19086779--19086836 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
19086769 TTTTAAGAAA
*
19086779 AAAATTTACAAAATTTTTTTT
1 AAAATTTATAAAA-TTTTTTT
19086800 AAAATTTATAAAATTTTTTT
1 AAAATTTATAAAATTTTTTT
19086820 AAAGA-TT-TAAAATTTTT
1 AAA-ATTTATAAAATTTTT
19086837 AGATGGAACC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 10 0.29
20 12 0.34
21 13 0.37
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AAAATTTATAAAATTTTTTT
Found at i:19086984 original size:21 final size:22
Alignment explanation
Indices: 19086955--19087002 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
19086945 TCCAATTTTA
19086955 TTTTT-AAACTCTTTT-TTACT
1 TTTTTAAAACTCTTTTATTACT
* *
19086975 TTTTTAAAACTTTTTTATTGCT
1 TTTTTAAAACTCTTTTATTACT
19086997 TTTTTA
1 TTTTTA
19087003 TTTTTGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 5 0.21
21 9 0.38
22 10 0.42
ACGTcount: A:0.21, C:0.10, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTTAAAACTCTTTTATTACT
Found at i:19089579 original size:14 final size:14
Alignment explanation
Indices: 19089560--19089586 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19089550 TTATTATATA
19089560 TTTTACAAATTAAT
1 TTTTACAAATTAAT
19089574 TTTTACAAATTAA
1 TTTTACAAATTAA
19089587 ATAAGCAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTTACAAATTAAT
Found at i:19089654 original size:13 final size:13
Alignment explanation
Indices: 19089636--19089665 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19089626 AATAGGAAAA
*
19089636 AATTGACATAAAT
1 AATTGAAATAAAT
19089649 AATTGAAATAAAT
1 AATTGAAATAAAT
19089662 AATT
1 AATT
19089666 AAAAAAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (13 bp):
AATTGAAATAAAT
Found at i:19089705 original size:17 final size:17
Alignment explanation
Indices: 19089679--19089728 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 17
19089669 AAAACAAAGA
19089679 AAATAATATATAAAAT--
1 AAATAA-ATATAAAATAG
19089695 AAATAAATATAAAATAG
1 AAATAAATATAAAATAG
*
19089712 AAATAAAAAGTAAAATA
1 AAATAAATA-TAAAATA
19089729 AGAATAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 9 0.30
16 6 0.20
17 8 0.27
18 7 0.23
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (17 bp):
AAATAAATATAAAATAG
Found at i:19089717 original size:11 final size:10
Alignment explanation
Indices: 19089678--19089741 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 10
19089668 AAAAACAAAG
19089678 AAAATAATATAT
1 AAAATAA-A-AT
19089690 AAAAT-AAAT
1 AAAATAAAAT
19089699 AAATATAAAAT
1 AAA-ATAAAAT
19089710 AGAAATAAAAAGT
1 A-AAAT-AAAA-T
19089723 AAAATAAGAAT
1 AAAATAA-AAT
19089734 AAAA-AAAA
1 AAAATAAAA
19089742 CAATTCAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
9 7 0.15
10 5 0.11
11 15 0.33
12 17 0.37
13 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:19089727 original size:18 final size:16
Alignment explanation
Indices: 19089678--19089738 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 16
19089668 AAAAACAAAG
*
19089678 AAAATAATATATAAAAT
1 AAAATAA-AAATAAAAT
*
19089695 -AAATAAATATAAAAT
1 AAAATAAAAATAAAAT
19089710 AGAAATAAAAAGTAAAAT
1 A-AAATAAAAA-TAAAAT
19089728 AAGAATAAAAA
1 AA-AATAAAAA
19089739 AAACAATTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 9 0.23
16 6 0.15
17 9 0.23
18 15 0.38
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:19090196 original size:17 final size:17
Alignment explanation
Indices: 19090162--19090201 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
19090152 TTAAACAACC
**
19090162 AAAATAAAAAATTTAAT
1 AAAATAAAAAATAAAAT
19090179 AAAATAAAAAATAAAAT
1 AAAATAAAAAATAAAAT
19090196 AGAAAT
1 A-AAAT
19090202 TTAATTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
AAAATAAAAAATAAAAT
Found at i:19093489 original size:36 final size:36
Alignment explanation
Indices: 19093444--19093540 Score: 133
Period size: 36 Copynumber: 2.7 Consensus size: 36
19093434 GAAGAATAAA
*
19093444 TAATAAAAATGTTTCCCTTAAAAATA-GTAGAACAAG
1 TAATAAAAATGTTTCCCTAAAAAATAGGT-GAACAAG
*
19093480 TAATTAAAATGTTTCCCTAAAAAATAGGTGAACAAG
1 TAATAAAAATGTTTCCCTAAAAAATAGGTGAACAAG
* * *
19093516 TAATGAGAATGTTTCTCTAAAAAAT
1 TAATAAAAATGTTTCCCTAAAAAAT
19093541 TGAAAAAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 53 0.96
37 2 0.04
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (36 bp):
TAATAAAAATGTTTCCCTAAAAAATAGGTGAACAAG
Found at i:19093636 original size:51 final size:52
Alignment explanation
Indices: 19093513--19093686 Score: 190
Period size: 50 Copynumber: 3.5 Consensus size: 52
19093503 ATAGGTGAAC
* *
19093513 AAGTAATGAGAATGTTTCTCTAAAAAATT---GAAAAA--ATTAAAAGGAAT
1 AAGTAATGAGAATGTTTCCCTAAAAAATTAAAAAAAAATTATTAAAAGGAAT
* *
19093560 AGGTAATG-GTCATGTTTCCCT-AAAAATTAAAAAAAAATTATTAAAAGGAAT
1 AAGTAATGAG-AATGTTTCCCTAAAAAATTAAAAAAAAATTATTAAAAGGAAT
*
19093611 AAGTAA-GAGAATGTTTCCCTAAAAAA-TAAAAAAAAATTATTAAAAAGAAT
1 AAGTAATGAGAATGTTTCCCTAAAAAATTAAAAAAAAATTATTAAAAGGAAT
* * *
19093661 AAATAATAAG-ATG-TTCTCTAAAAAAT
1 AAGTAATGAGAATGTTTCCCTAAAAAAT
19093687 AGTGAAATAA
Statistics
Matches: 107, Mismatches: 10, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
46 8 0.07
47 16 0.15
49 16 0.15
50 42 0.39
51 25 0.23
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.28
Consensus pattern (52 bp):
AAGTAATGAGAATGTTTCCCTAAAAAATTAAAAAAAAATTATTAAAAGGAAT
Found at i:19125958 original size:270 final size:274
Alignment explanation
Indices: 19125477--19125998 Score: 802
Period size: 270 Copynumber: 1.9 Consensus size: 274
19125467 AAATAATTTT
* *
19125477 AAAAACTAAATTGATTATATTAATGTTTTTATTATAATCCGTAAATCACTTTCAATTCAATTCAT
1 AAAAACTAAATTGATTATATTAATGTTTTTATTATAATCCGTAAATCAATCTCAATTCAATTCAT
*
19125542 ATTAAAAGTATTAAAATTTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAATATATAATTA
66 ATTAAAAGTATTAAAATTTTAAAAATTTATTAATTTGACAAATTAAATCAATCAATATATAATTA
* * *
19125607 ATAAATTAATAAATACTATAATTACAATTATAACATAGTTAATTCTTTACTCAAATATTTGATAT
131 ATAAATTAATAAATACTATAATTACAATTATAAAATAGTTAATTCTCTACTCAAATATTTGATAG
19125672 ATTTATATTTGATTAAATATAATA-TC-T-AGTAATTGATGTATTTCATG-TGTAAATATATAAA
196 ATTTATATTTGATTAAATATAATATTCATGAGTAATTGATGTATTTCATGATGTAAATATATAAA
19125733 GTAAATATAATTCA
261 GTAAATATAATTCA
* * * * ** * * *
19125747 AAAAACTAAGTTGGTTATATTTATGTTTTTATTATTGAT-TTTAAATTAATCTCAATTTAATTTA
1 AAAAACTAAATTGATTATATTAATGTTTTTATTA-TAATCCGTAAATCAATCTCAATTCAATTCA
19125811 TATTAAAAGTATTAAAATTTTAAAAATTTATTAATTTGACAAATTAAATCAATCAATATATAATT
65 TATTAAAAGTATTAAAATTTTAAAAATTTATTAATTTGACAAATTAAATCAATCAATATATAATT
* * * *
19125876 AATAAATTAATAAATACTATAATTACAATTATAAAATAGTTGATTCTCTATTTAATTATTTGATA
130 AATAAATTAATAAATACTATAATTACAATTATAAAATAGTTAATTCTCTACTCAAATATTTGATA
*
19125941 GATTTATATTTGATTAAATATAGTATTCAATTGAGTAATTGATGTATTTCATGATGTA
195 GATTTATATTTGATTAAATATAATATTC-A-TGAGTAATTGATGTATTTCATGATGTA
19125999 TTTCATGTGT
Statistics
Matches: 225, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
270 195 0.87
271 5 0.02
274 1 0.00
275 20 0.09
276 4 0.02
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Consensus pattern (274 bp):
AAAAACTAAATTGATTATATTAATGTTTTTATTATAATCCGTAAATCAATCTCAATTCAATTCAT
ATTAAAAGTATTAAAATTTTAAAAATTTATTAATTTGACAAATTAAATCAATCAATATATAATTA
ATAAATTAATAAATACTATAATTACAATTATAAAATAGTTAATTCTCTACTCAAATATTTGATAG
ATTTATATTTGATTAAATATAATATTCATGAGTAATTGATGTATTTCATGATGTAAATATATAAA
GTAAATATAATTCA
Found at i:19125995 original size:12 final size:12
Alignment explanation
Indices: 19125980--19126009 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
19125970 ATTGAGTAAT
19125980 TGATGTATTTCA
1 TGATGTATTTCA
19125992 TGATGTATTTCA
1 TGATGTATTTCA
19126004 TG-TGTA
1 TGATGTA
19126010 AATATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.23, C:0.07, G:0.20, T:0.50
Consensus pattern (12 bp):
TGATGTATTTCA
Found at i:19126809 original size:32 final size:32
Alignment explanation
Indices: 19126772--19126852 Score: 110
Period size: 32 Copynumber: 2.6 Consensus size: 32
19126762 AATATGATTT
* * * *
19126772 CATTTGACTTCATTTGGTAAAATATTAATGTA
1 CATTTGATTTCATTTGATAAAACATTAATGCA
19126804 CATTTGATTTCATTTGATAAAACATTAATGCA
1 CATTTGATTTCATTTGATAAAACATTAATGCA
*
19126836 C-TTAGATTTCATTTGAT
1 CATTTGATTTCATTTGAT
19126853 TTCATTTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 15 0.34
32 29 0.66
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (32 bp):
CATTTGATTTCATTTGATAAAACATTAATGCA
Found at i:19128704 original size:23 final size:23
Alignment explanation
Indices: 19128658--19128705 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
19128648 CAAAGTATAA
*
19128658 TTATAAACCTATATTAGGTAAAT
1 TTATAAACCTATACTAGGTAAAT
* *
19128681 TTATAAACCTATACTATGTGAAT
1 TTATAAACCTATACTAGGTAAAT
19128704 TT
1 TT
19128706 TCTTCTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (23 bp):
TTATAAACCTATACTAGGTAAAT
Found at i:19129990 original size:191 final size:191
Alignment explanation
Indices: 19129657--19130037 Score: 548
Period size: 191 Copynumber: 2.0 Consensus size: 191
19129647 CAGCACAAGT
* * * * *
19129657 TATGTTATTGGCATATGTTTTGTTCACTCTTTCATTCTAATGGACTTGTGCATGAGGGGTAGTTA
1 TATGTCATGGGCATATATTTTGTTCACTCTTTCATTCTAATGGACTTGCGCAGGAGGGGTAGTTA
* * *
19129722 ATAAACCAGGTAACATAACATTGTCGTAAGTATCAGTGGTCCTATATTGCCTACCCATCAAAACT
66 ATAAACCAGGCAACACAACATTGTCGTAAGTATCAATGGTCCTATATTGCCTACCCATCAAAACT
* *
19129787 CAGAATATGTGACCACACTTCTTGTCTTTTCCTAGGTAAGACATCTATTGTGTCAAATTCC
131 CAAAATATGTGACCACACTTCTTATCTTTTCCTAGGTAAGACATCTATTGTGTCAAATTCC
* * *
19129848 TATGTCATGGGCATATATTTTGTTCACTCTTTCATTTTAGTGGACTTGCGTAGGAGGGGTAGTTA
1 TATGTCATGGGCATATATTTTGTTCACTCTTTCATTCTAATGGACTTGCGCAGGAGGGGTAGTTA
* ** * * *
19129913 ATAAACTAGGCAACACAACATTG-CTGTAAGTATCAATGGTTTTATATTGCTTATCTATCAAAAC
66 ATAAACCAGGCAACACAACATTGTC-GTAAGTATCAATGGTCCTATATTGCCTACCCATCAAAAC
* * *
19129977 TCAAAATATGTGACCATACTTCTTATTTTTTCCTAGGTAGGACATCTATTGTGTCAAATTC
130 TCAAAATATGTGACCACACTTCTTATCTTTTCCTAGGTAAGACATCTATTGTGTCAAATTC
19130038 TTATTAAAGA
Statistics
Matches: 167, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
190 1 0.01
191 166 0.99
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (191 bp):
TATGTCATGGGCATATATTTTGTTCACTCTTTCATTCTAATGGACTTGCGCAGGAGGGGTAGTTA
ATAAACCAGGCAACACAACATTGTCGTAAGTATCAATGGTCCTATATTGCCTACCCATCAAAACT
CAAAATATGTGACCACACTTCTTATCTTTTCCTAGGTAAGACATCTATTGTGTCAAATTCC
Found at i:19132721 original size:21 final size:22
Alignment explanation
Indices: 19132697--19132741 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
19132687 TCATTATTCA
* *
19132697 TTTATTATTAGTAT-TTTGTTT
1 TTTATCATTAGTATATTTATTT
*
19132718 TTTATCATTATTATATTTATTT
1 TTTATCATTAGTATATTTATTT
19132740 TT
1 TT
19132742 ACATATCCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (22 bp):
TTTATCATTAGTATATTTATTT
Found at i:19137690 original size:10 final size:11
Alignment explanation
Indices: 19137666--19137703 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
19137656 GCCAATAACT
19137666 AAAACTAAAGA
1 AAAACTAAAGA
19137677 AAAACTAAAGAA
1 AAAACTAAAG-A
19137689 AAGAACTAAA-A
1 AA-AACTAAAGA
19137700 AAAA
1 AAAA
19137704 AAAAAAGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.08
11 13 0.52
12 3 0.12
13 7 0.28
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAACTAAAGA
Found at i:19140226 original size:23 final size:24
Alignment explanation
Indices: 19140199--19140243 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
19140189 CATGAGAAAG
**
19140199 TAAATAAATGAATA-AAAGAAAAT
1 TAAATAAAAAAATATAAAGAAAAT
19140222 TAAATAAAAAAATATAAAGAAA
1 TAAATAAAAAAATATAAAGAAA
19140244 CAAAGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (24 bp):
TAAATAAAAAAATATAAAGAAAAT
Found at i:19140836 original size:25 final size:25
Alignment explanation
Indices: 19140786--19140847 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
19140776 ATAATTATAT
*
19140786 TTAAATTACTTATTTATTTAACATG
1 TTAAATTATTTATTTATTTAACATG
**
19140811 TTAAATTATTTATTTATTTAGGATG
1 TTAAATTATTTATTTATTTAACATG
*
19140836 -TAAATGATTTAT
1 TTAAATTATTTAT
19140848 GATCAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
24 11 0.33
25 22 0.67
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.53
Consensus pattern (25 bp):
TTAAATTATTTATTTATTTAACATG
Found at i:19141390 original size:23 final size:22
Alignment explanation
Indices: 19141364--19141434 Score: 106
Period size: 23 Copynumber: 3.1 Consensus size: 22
19141354 TAAAAATTCT
*
19141364 AAAAAATTCTAAAATTTTTTTTA
1 AAAAAATTCCAAAA-TTTTTTTA
19141387 AAAAAATTCCAAAACTTTTTTTA
1 AAAAAATTCCAAAA-TTTTTTTA
*
19141410 AAAAAATTCCAAAACTTTTTTA
1 AAAAAATTCCAAAATTTTTTTA
19141432 AAA
1 AAA
19141435 TTCTAAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
22 10 0.22
23 35 0.78
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAAATTCCAAAATTTTTTTA
Found at i:19141472 original size:9 final size:9
Alignment explanation
Indices: 19141460--19141527 Score: 55
Period size: 9 Copynumber: 6.9 Consensus size: 9
19141450 AAAATTTTCA
19141460 AAAAAATTT
1 AAAAAATTT
* *
19141469 AAAAACTTC
1 AAAAAATTT
19141478 AAAAAATTTT
1 AAAAAA-TTT
*
19141488 CAAAACAATTC
1 -AAAA-AATTT
19141499 AAACAAATTT
1 AAA-AAATTT
19141509 AAAAAATTAT
1 AAAAAATT-T
19141519 GAAAAAATT
1 -AAAAAATT
19141528 CTAACAGATT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
9 17 0.36
10 13 0.28
11 15 0.32
12 2 0.04
ACGTcount: A:0.62, C:0.09, G:0.01, T:0.28
Consensus pattern (9 bp):
AAAAAATTT
Found at i:19141472 original size:19 final size:19
Alignment explanation
Indices: 19141450--19141513 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
19141440 AATAATTTTG
*
19141450 AAAATTTTCAAAAAAATTT
1 AAAAATTTCAAAAAAATTT
* *
19141469 AAAAACTTCAAAAAATTTT
1 AAAAATTTCAAAAAAATTT
* *
19141488 CAAAACAATTCAAACAAATTT
1 -AAAA-ATTTCAAAAAAATTT
19141509 AAAAA
1 AAAAA
19141514 ATTATGAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 17 0.46
20 8 0.22
21 12 0.32
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAATTTCAAAAAAATTT
Found at i:19141486 original size:30 final size:31
Alignment explanation
Indices: 19141450--19141533 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 31
19141440 AATAATTTTG
* *
19141450 AAAATTTTCAAAAAAATTTAAA-AACTTCAA
1 AAAATTTTCAAAAAAATTCAAACAAATTCAA
* *
19141480 AAAATTTTCAAAACAATTCAAACAAATTTAA
1 AAAATTTTCAAAAAAATTCAAACAAATTCAA
* * *
19141511 AAAATTAT-GAAAAAATTCTAACA
1 AAAATTTTCAAAAAAATTCAAACA
19141534 GATTTTTGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
30 32 0.71
31 13 0.29
ACGTcount: A:0.60, C:0.11, G:0.01, T:0.29
Consensus pattern (31 bp):
AAAATTTTCAAAAAAATTCAAACAAATTCAA
Found at i:19141572 original size:10 final size:10
Alignment explanation
Indices: 19141431--19141573 Score: 53
Period size: 10 Copynumber: 14.2 Consensus size: 10
19141421 AAACTTTTTT
*
19141431 AAAATTCTAA
1 AAAATTTTAA
* *
19141441 ATAATTTT-G
1 AAAATTTTAA
19141450 AAAATTTTCAA
1 AAAATTTT-AA
*
19141461 AAAAATTT-A
1 AAAATTTTAA
* *
19141470 AAAACTTCAA
1 AAAATTTTAA
19141480 AAAATTTTCAA
1 AAAATTTT-AA
*
19141491 AACAA-TTCAA
1 AA-AATTTTAA
19141501 ACAAA-TTTAA
1 A-AAATTTTAA
*
19141511 AAAATTATGAA
1 AAAATT-TTAA
*
19141522 AAAATTCTAA
1 AAAATTTTAA
* * *
19141532 CAGATTTT-T
1 AAAATTTTAA
* **
19141541 GAAATTTTTT
1 AAAATTTTAA
*
19141551 GAAATTTATAA
1 AAAATTT-TAA
19141562 AAAATTTTAA
1 AAAATTTTAA
19141572 AA
1 AA
19141574 TTTCAAAAAT
Statistics
Matches: 99, Mismatches: 24, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
9 23 0.23
10 44 0.44
11 30 0.30
12 2 0.02
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:19141582 original size:19 final size:19
Alignment explanation
Indices: 19141427--19141582 Score: 59
Period size: 19 Copynumber: 7.9 Consensus size: 19
19141417 TCCAAAACTT
* *
19141427 TTTTAAAA-TTCTAAATAA
1 TTTTAAAATTTCAAAAAAA
19141445 TTTTGAAAATTTTCAAAAAAA
1 TTTT-AAAA-TTTCAAAAAAA
* *
19141466 TTTAAAAACTTC-AAAAAA
1 TTTTAAAATTTCAAAAAAA
* *
19141484 TTTTCAAAACAATTCAAACAAA
1 TTTT--AAA-ATTTCAAAAAAA
* *
19141506 TTTAAAAAATTAT-GAAAAAA
1 TTT-TAAAATT-TCAAAAAAA
* *** **
19141526 TTCTAACAGATTTTTGAAATT
1 TTTTAA-A-ATTTCAAAAAAA
*
19141547 TTTTGAAATTT-ATAAAAAA
1 TTTTAAAATTTCA-AAAAAA
19141566 TTTTAAAATTTCAAAAA
1 TTTTAAAATTTCAAAAA
19141583 TTTCTCAAAA
Statistics
Matches: 100, Mismatches: 24, Indels: 27
0.66 0.16 0.18
Matches are distributed among these distances:
18 13 0.13
19 30 0.30
20 20 0.20
21 29 0.29
22 8 0.08
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (19 bp):
TTTTAAAATTTCAAAAAAA
Found at i:19142435 original size:18 final size:19
Alignment explanation
Indices: 19142387--19142437 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
19142377 CGATCTGAAA
19142387 TTAATA-AAATATTATTTT
1 TTAATATAAATATTATTTT
19142405 TTAAATATAAAATATTA-TTT
1 TT-AATAT-AAATATTATTTT
19142425 TTAATATAAATAT
1 TTAATATAAATAT
19142438 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.27
19 9 0.30
20 5 0.17
21 8 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAATATAAATATTATTTT
Found at i:19142442 original size:25 final size:21
Alignment explanation
Indices: 19142390--19142434 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
19142380 TCTGAAATTA
19142390 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
19142411 ATAAAATATTA-TTTTT-AAT
1 ATAAAATATTATTTTTTAAAT
19142430 ATAAA
1 ATAAA
19142435 TATAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.33
20 5 0.21
21 11 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:19142446 original size:12 final size:11
Alignment explanation
Indices: 19142430--19142497 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 11
19142420 TATTTTTAAT
19142430 ATAAATATAAA
1 ATAAATATAAA
19142441 ATTAAATATATATA
1 A-TAAATATA-A-A
19142455 A-AAATATATAA
1 ATAAATATA-AA
*
19142466 ATAATTATAAA
1 ATAAATATAAA
*
19142477 ATTAA-ATAAA
1 ATAAATATAAA
*
19142487 A-AAATTTAAA
1 ATAAATATAAA
19142497 A
1 A
19142498 AATAATTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
9 2 0.04
10 11 0.23
11 8 0.17
12 23 0.49
13 1 0.02
14 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAAATATAAA
Found at i:19142461 original size:10 final size:10
Alignment explanation
Indices: 19142443--19142498 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
19142433 AATATAAAAT
*
19142443 TAAATATATA
1 TAAAAATATA
19142453 TAAAAATATA
1 TAAAAATATA
19142463 TAAATAAT-TA
1 TAAA-AATATA
* *
19142473 TAAAATTAAA
1 TAAAAATATA
* *
19142483 TAAAAAAATT
1 TAAAAATATA
19142493 TAAAAA
1 TAAAAA
19142499 ATAATTTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
9 2 0.05
10 32 0.86
11 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TAAAAATATA
Found at i:19155886 original size:26 final size:28
Alignment explanation
Indices: 19155843--19155895 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
19155833 GAATTGATTC
19155843 TCAAAACTATCAAATTATCAAAAAGTTA
1 TCAAAACTATCAAATTATCAAAAAGTTA
* *
19155871 TCAAAA-TATC-AATTATTAACAAGTT
1 TCAAAACTATCAAATTATCAAAAAGTT
19155896 TAATGCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 4 0.17
28 6 0.26
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (28 bp):
TCAAAACTATCAAATTATCAAAAAGTTA
Found at i:19168840 original size:41 final size:41
Alignment explanation
Indices: 19168788--19168877 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
19168778 TTGAAAGAAA
* *
19168788 TTAAGGCTCCTTTAAAGTTAAAAAACACAACTTCAAAAATT
1 TTAAGGCTCCTTTAAAATGAAAAAACACAACTTCAAAAATT
* ** **
19168829 TTAAGGTTCCTTTAAAATGAAAGCACACAACTTTGAAAATT
1 TTAAGGCTCCTTTAAAATGAAAAAACACAACTTCAAAAATT
19168870 TTAAGGCT
1 TTAAGGCT
19168878 TCATTAACAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (41 bp):
TTAAGGCTCCTTTAAAATGAAAAAACACAACTTCAAAAATT
Found at i:19168982 original size:28 final size:28
Alignment explanation
Indices: 19168942--19168995 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
19168932 GTTGATTCTC
19168942 TTACCCAAAAATATTTTCTCCTTCAAGA
1 TTACCCAAAAATATTTTCTCCTTCAAGA
* * *
19168970 TTACCTAAGAATATTTTCTCTTTCAA
1 TTACCCAAAAATATTTTCTCCTTCAA
19168996 AATTGAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (28 bp):
TTACCCAAAAATATTTTCTCCTTCAAGA
Found at i:19171164 original size:28 final size:28
Alignment explanation
Indices: 19171124--19171179 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
19171114 ATCAAGAAAG
*
19171124 AATCCCATAGCTAGCCTTCTAATGACCA
1 AATCCCATAGCTAGCCTTCTAATAACCA
*
19171152 AATCCCATAGCTAGCCTTTTAATAACCA
1 AATCCCATAGCTAGCCTTCTAATAACCA
19171180 TTTTGTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.34, C:0.30, G:0.09, T:0.27
Consensus pattern (28 bp):
AATCCCATAGCTAGCCTTCTAATAACCA
Found at i:19172668 original size:12 final size:12
Alignment explanation
Indices: 19172644--19172679 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
19172634 TTGCATGGAG
19172644 TGTATGG-TTCA
1 TGTATGGCTTCA
19172655 TGTATGGCTTCA
1 TGTATGGCTTCA
19172667 TGTATGGCTTCA
1 TGTATGGCTTCA
19172679 T
1 T
19172680 TTTTACCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.29
12 17 0.71
ACGTcount: A:0.17, C:0.14, G:0.25, T:0.44
Consensus pattern (12 bp):
TGTATGGCTTCA
Found at i:19175705 original size:7 final size:7
Alignment explanation
Indices: 19175693--19175763 Score: 52
Period size: 7 Copynumber: 9.7 Consensus size: 7
19175683 TGGAACAACT
19175693 CCTAAAC
1 CCTAAAC
19175700 CCTAAAC
1 CCTAAAC
*
19175707 CTTAAAAC
1 CCT-AAAC
**
19175715 TTTAAAAC
1 CCT-AAAC
19175723 CCTAAAC
1 CCTAAAC
* *
19175730 CATAAAT
1 CCTAAAC
*
19175737 CTTAAAAC
1 CCT-AAAC
19175745 CCTAAAC
1 CCTAAAC
*
19175752 CCCAAAC
1 CCTAAAC
19175759 CCTAA
1 CCTAA
19175764 GTTTAAACCT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
7 34 0.67
8 17 0.33
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (7 bp):
CCTAAAC
Found at i:19175715 original size:23 final size:23
Alignment explanation
Indices: 19175696--19175752 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 23
19175686 AACAACTCCT
*
19175696 AAACCCTAAACCTTAAAACT-TTA
1 AAACCCTAAACCAT-AAACTCTTA
19175719 AAACCCTAAACCATAAA-TCTTA
1 AAACCCTAAACCATAAACTCTTA
19175741 AAACCCTAAACC
1 AAACCCTAAACC
19175753 CCAAACCCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 1 0.03
22 18 0.56
23 13 0.41
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (23 bp):
AAACCCTAAACCATAAACTCTTA
Found at i:19175720 original size:22 final size:22
Alignment explanation
Indices: 19175695--19175752 Score: 80
Period size: 23 Copynumber: 2.6 Consensus size: 22
19175685 GAACAACTCC
*
19175695 TAAACCCTAAACCTTAAAACTT
1 TAAACCCTAAACCATAAAACTT
*
19175717 TAAAACCCTAAACCATAAATCTT
1 T-AAACCCTAAACCATAAAACTT
*
19175740 AAAACCCTAAACC
1 TAAACCCTAAACC
19175753 CCAAACCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAACCCTAAACCATAAAACTT
Found at i:19175727 original size:30 final size:29
Alignment explanation
Indices: 19175693--19175763 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
19175683 TGGAACAACT
**
19175693 CCTAAACCCTAAACCTTAAAACTTTAAAAC
1 CCTAAACCCTAAACCTTAAAACCCT-AAAC
* *
19175723 CCTAAACCATAAATCTTAAAACCCTAAAC
1 CCTAAACCCTAAACCTTAAAACCCTAAAC
*
19175752 CCCAAACCCTAA
1 CCTAAACCCTAA
19175764 GTTTAAACCT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 14 0.40
30 21 0.60
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (29 bp):
CCTAAACCCTAAACCTTAAAACCCTAAAC
Found at i:19180067 original size:17 final size:18
Alignment explanation
Indices: 19180029--19180074 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
19180019 AAGTTGCATT
*
19180029 TTTCAAAATGAAAATAGT
1 TTTCAAAATGAAAATAGA
*
19180047 TTTCAAATTGAAAAT-GA
1 TTTCAAAATGAAAATAGA
19180064 TTTCTAAAATG
1 TTTC-AAAATG
19180075 GTAATTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.37
Consensus pattern (18 bp):
TTTCAAAATGAAAATAGA
Found at i:19181949 original size:22 final size:22
Alignment explanation
Indices: 19181924--19181977 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
19181914 TATTCATAGT
*
19181924 TCATGTTGAACTTCAACATGAA
1 TCATATTGAACTTCAACATGAA
19181946 TCATATTGAACTTCAACATGAA
1 TCATATTGAACTTCAACATGAA
19181968 TCATATTGAA
1 TCATATTGAA
19181978 ACAACCTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (22 bp):
TCATATTGAACTTCAACATGAA
Found at i:19190179 original size:25 final size:25
Alignment explanation
Indices: 19190150--19190199 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
19190140 TTACTACTAT
19190150 AATCTTTTGAGGAAATATTTTAATA
1 AATCTTTTGAGGAAATATTTTAATA
19190175 AATCTTTTGAGGAAATATTTTAATA
1 AATCTTTTGAGGAAATATTTTAATA
19190200 GAAGTAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (25 bp):
AATCTTTTGAGGAAATATTTTAATA
Found at i:19190195 original size:13 final size:13
Alignment explanation
Indices: 19190154--19190195 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
19190144 TACTATAATC
19190154 TTTTGAGGAAATA
1 TTTTGAGGAAATA
** *
19190167 TTTT-AATAAATC
1 TTTTGAGGAAATA
19190179 TTTTGAGGAAATA
1 TTTTGAGGAAATA
19190192 TTTT
1 TTTT
19190196 AATAGAAGTA
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (13 bp):
TTTTGAGGAAATA
Found at i:19192160 original size:16 final size:17
Alignment explanation
Indices: 19192127--19192162 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
19192117 TCAAATTATG
19192127 TATTTTTATTAATTTTTA
1 TATTTTTATT-ATTTTTA
19192145 TATTTTTATT-TTTTTA
1 TATTTTTATTATTTTTA
19192161 TA
1 TA
19192163 AAATAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TATTTTTATTATTTTTA
Found at i:19194852 original size:18 final size:18
Alignment explanation
Indices: 19194830--19194868 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
19194820 AAGCTTGGAA
*
19194830 AAAAAATAAAAAAAAAGAG
1 AAAAAA-AAAGAAAAAGAG
*
19194849 AAAAAAAAAGAAAATGAG
1 AAAAAAAAAGAAAAAGAG
19194867 AA
1 AA
19194869 TAAAGTGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAGAG
Found at i:19195981 original size:25 final size:25
Alignment explanation
Indices: 19195959--19196005 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
19195949 GGGTGCTTGT
*
19195959 TGATTTGGACTTTCTAAGTGCTTAC
1 TGATTTGGACATTCTAAGTGCTTAC
19195984 TGATTTGGACATTCTAAG-GCTT
1 TGATTTGGACATTCTAAGTGCTT
19196006 TCATTAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (25 bp):
TGATTTGGACATTCTAAGTGCTTAC
Found at i:19197416 original size:96 final size:96
Alignment explanation
Indices: 19197304--19197497 Score: 388
Period size: 96 Copynumber: 2.0 Consensus size: 96
19197294 ATTGCTAGGA
19197304 TAGATTTTCTTTCATATGCTTACATTATTCAATTACCTTATTTTTATTCTTGCATTGTTTACTTG
1 TAGATTTTCTTTCATATGCTTACATTATTCAATTACCTTATTTTTATTCTTGCATTGTTTACTTG
19197369 TTATAGTTTGTTTGTTTACTTTATATGCATT
66 TTATAGTTTGTTTGTTTACTTTATATGCATT
19197400 TAGATTTTCTTTCATATGCTTACATTATTCAATTACCTTATTTTTATTCTTGCATTGTTTACTTG
1 TAGATTTTCTTTCATATGCTTACATTATTCAATTACCTTATTTTTATTCTTGCATTGTTTACTTG
19197465 TTATAGTTTGTTTGTTTACTTTATATGCATT
66 TTATAGTTTGTTTGTTTACTTTATATGCATT
19197496 TA
1 TA
19197498 CCTTGCTTTC
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 98 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.57
Consensus pattern (96 bp):
TAGATTTTCTTTCATATGCTTACATTATTCAATTACCTTATTTTTATTCTTGCATTGTTTACTTG
TTATAGTTTGTTTGTTTACTTTATATGCATT
Found at i:19198715 original size:24 final size:23
Alignment explanation
Indices: 19198688--19198745 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 23
19198678 ATATATTTAT
19198688 ATAATTTTATATTTTATTAAAAA-A
1 ATAATTTTATATTTTA--AAAAATA
19198712 ATAATATTTTATATTTTAAAAAATA
1 AT-A-ATTTTATATTTTAAAAAATA
19198737 AT-ATTTTAT
1 ATAATTTTAT
19198746 TAATTTAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
22 7 0.23
24 7 0.23
25 4 0.13
26 13 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATAATTTTATATTTTAAAAAATA
Found at i:19198720 original size:19 final size:19
Alignment explanation
Indices: 19198696--19198748 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 19
19198686 ATATAATTTT
19198696 ATATTTTATTAAAAAAATA
1 ATATTTTATTAAAAAAATA
*
19198715 ATATTTTATATTTTAAAAAATA
1 ATA-TTT-TA-TTAAAAAAATA
19198737 ATATTTTATTAA
1 ATATTTTATTAA
19198749 TTTAGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 6 0.21
20 5 0.17
21 5 0.17
22 13 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTTATTAAAAAAATA
Found at i:19198752 original size:23 final size:22
Alignment explanation
Indices: 19198707--19198752 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
19198697 TATTTTATTA
*
19198707 AAAAAATAATATTTTATATTTT
1 AAAAAATAATATTTTATAATTT
19198729 AAAAAATAATATTTTATTAATTT
1 AAAAAATAATATTTTA-TAATTT
19198752 A
1 A
19198753 GGGTCGGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAAAATAATATTTTATAATTT
Found at i:19201748 original size:17 final size:17
Alignment explanation
Indices: 19201728--19201769 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
19201718 TTAAAAAAGA
19201728 ATATTATATTAAAATTT
1 ATATTATATTAAAATTT
* *
19201745 ATATTA-AATGAAATTT
1 ATATTATATTAAAATTT
*
19201761 ATAATATAT
1 ATATTATAT
19201770 ATTTGATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
ATATTATATTAAAATTT
Found at i:19201857 original size:19 final size:19
Alignment explanation
Indices: 19201827--19201875 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 19
19201817 TTTTTATATA
19201827 TAAATCAAATAATACTTTTG
1 TAAAT-AAATAATACTTTTG
*
19201847 TAAATAAATAATAGTTTTG
1 TAAATAAATAATACTTTTG
19201866 TAAATAAATA
1 TAAATAAATA
19201876 TTAATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (19 bp):
TAAATAAATAATACTTTTG
Found at i:19202446 original size:15 final size:16
Alignment explanation
Indices: 19202421--19202459 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
19202411 AAATTTATTA
*
19202421 AAATTATTTTAATAAT
1 AAATAATTTTAATAAT
*
19202437 -AATAATTTTATTAAT
1 AAATAATTTTAATAAT
19202452 AAATAATT
1 AAATAATT
19202460 AAATTTACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATAATTTTAATAAT
Found at i:19202883 original size:20 final size:21
Alignment explanation
Indices: 19202856--19202907 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
19202846 AATTTTTTTG
*
19202856 TAAT-TTATTTTTAA-TT-TT
1 TAATATTATTTATAATTTATT
19202874 TAATAATTATATTATAATTTATT
1 TAAT-ATTAT-TTATAATTTATT
19202897 TAATATTATTT
1 TAATATTATTT
19202908 CAAAATTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.14
20 4 0.14
21 7 0.25
22 7 0.25
23 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TAATATTATTTATAATTTATT
Found at i:19202914 original size:22 final size:23
Alignment explanation
Indices: 19202872--19202915 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
19202862 ATTTTTAATT
*
19202872 TTTAATAATTATATTATAATTTA
1 TTTAATAATTATATTAAAATTTA
19202895 TTTAAT-ATTAT-TTCAAAATTT
1 TTTAATAATTATATT-AAAATTT
19202916 CAAAAATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 2 0.11
22 11 0.58
23 6 0.32
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAATAATTATATTAAAATTTA
Done.